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How do I add two different monomers to the tool and specify each on its own?
Closed | Responses: 1
PEEK, PGMA modeling
Is it possible to create PEEK and Poly(glycidyl methacrylate) molecular structure in this tool?
Can that structure be output to run MD?
Is it possible to create polymers which contains Silicon?
I'm trying to model PDMS, which contains Silicon atoms. The result of the simulation is an error: "Unknown element Si". Any suggestion?
Stress Strain Curve Question
Closed | Responses: 2
Great tool! I have a few technical questions.
1. What are the units of the output Pressures? (Press, Pxx. Pyy, ...., Pyz)
2. I would like to establish a...
How to obtain stress-strain curve
Is it possible to obtain a stress-strain curve for a polymer with your tool? I would like to measure Young's Modulus of your polymers.
Use the generated initial configuration in a larger simulation box
Closed | Responses: 0
I have generated successfully an initial configuration of PE in a 50x50x50 A^3 box.
However, once in LAMMPS, I am interested in studying the interaction of...
How to change density of polymer to more than 1.0 g/cm3
Hi , i am using LAMMPS to find out friction of between PMMA and some metal substrates . But i need PMMA which is higher than density of 1.0g/cm3 .
I thought ,...
Is it possible to use Polymer Modeler locally on my computer?
What are the Dreiding paramters for graphene ?
I am using lammps to simulate PMMA-graphene composite system. I used polymer modeller to create the PMMA chains. I want to add the graphene sheet but I am not sure what...
when I runn with my own exe.lammps 3 minimize has done but at fix 1 all nvt temp 300.0 300.0 100.0 this error apear: ERROR: All pair coeffs are not set (../pair.cpp:175) I will be very thankfull.
how to get a final pdb structure
Why does my simulation end with an error?
I'm interested in building long polymer chains and was eager to try out this tool. However, it appears that I get an error when I begin a simulation of a polymer built from...
Polymer modeler and Mavericks
Dear Sir, I'm trying to launch polymer modeler tool in a Mavericks MacOs machine and the site seems to be loading but nothing happens. My java version is updated (version 7 update 60). Can...
Is there a way to specify an orthogonal but non-cubic simulation box or is a cubic box the only option?
I can’t get LAMMPS output files
I’m trying to run a simulation of Nylon (PA6) using z-matrix. So it works when I try to get structure output only, but in case of LAMMPS output files it makes an error like that:
When I try to construct a single polymer chain either with the available monomers or with my own z-matrix, i get the following output in the log:
ERROR: builder failed:...
Can i get the simulation for catechol using nanohub?I did it for chitin and cellulose and got results cathechol is not a polymer.
Proper z-matrix format
I am finding it hard to make the z-matrix. I see that the z-matrices of all polymers within the tool starts with H as the initial atom. Open babel can give me the matrix...
Building certain polymers
I am using Polymer Builder for the first time. I am trying to build teo polymers. One of them is called PE-OC6http://nanohub.org/answers/question/1008
error when producing z-matrix
Open | Responses: 1
I tried to build 10 chains of Polyethylene, each contains 10 monomers. I wanted to produce only the z-matrix as the output. But it was failed. The error message I saw at the end was...